{ "type": "genome", "identifier": "GCF_000409225.1", "organism": "Cronobacter dublinensis subsp. dublinensis LMG 23823", "title": "Cronobacter dublinensis subsp. dublinensis LMG 23823", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Cronobacter Genus Genome Sequencing Consortium", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000409225.1", "bioproject": "PRJNA224116", "biosample": "SAMN02952933", "wgs_master": "AJKZ00000000.1", "refseq_category": "na", "taxid": "1159554", "species_taxid": "413497", "organism_name": "Cronobacter dublinensis subsp. dublinensis LMG 23823", "infraspecific_name": "strain=LMG 23823", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/06/07", "asm_name": "cddub187 final contigs", "asm_submitter": "Cronobacter Genus Genome Sequencing Consortium", "gbrs_paired_asm": "GCA_000409225.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/409/225/GCF_000409225.1_cddub187_final_contigs", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4577611", "genome_size_ungapped": "4577611", "gc_percent": "58.000000", "replicon_count": "0", "scaffold_count": "82", "contig_count": "82", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000409225.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "4388", "protein_coding_gene_count": "4239", "non_coding_gene_count": "89", "pubmed_id": "23724777" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-06-07", "dateModified": "2013-06-07", "datePublished": "2013-06-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Cronobacter dublinensis subsp. dublinensis LMG 23823" ], "sample_taxid": [ "1159554" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Ireland: Dublin" ], "sample_host_location_id": [], "data_size": "1.288 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 97.92, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4577611", "Number of Sequences": "82", "Longest Sequences (bp)": "999716", "N50 (bp)": "249224", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "57.8", "Number of CDSs": "4241", "Average Protein Length": "314.0", "Coding Ratio (%)": "87.3", "Number of rRNAs": "3", "Number of tRNAs": "74", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cronobacter dublinensis subsp. dublinensis", "strain": "strain=LMG 23823", "accession": "GCA_000409225.1", "taxid": 413498, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1494, "total_fragments": 1495, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Cronobacter dublinensis subsp. dublinensis", "strain": "strain=LMG 23823", "accession": "GCA_001277235.1", "taxid": 413498, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 99.9997, "matched_fragments": 1493, "total_fragments": 1495, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Cronobacter dublinensis subsp. lactaridi", "strain": "strain=LMG 23825", "accession": "GCA_000409345.1", "taxid": 413499, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 97.4349, "matched_fragments": 1337, "total_fragments": 1495, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Cronobacter dublinensis subsp. lausannensis", "strain": "strain=LMG 23824", "accession": "GCA_000409365.1", "taxid": 413500, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 97.4048, "matched_fragments": 1316, "total_fragments": 1495, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Cronobacter muytjensii", "strain": "strain=ATCC 51329", "accession": "GCA_000409285.1", "taxid": 413501, "species_taxid": 413501, "relation_to_type": "type", "validated": true, "ani": 92.2826, "matched_fragments": 1265, "total_fragments": 1495, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter sakazakii", "strain": "strain=ATCC 29544", "accession": "GCA_001971035.1", "taxid": 28141, "species_taxid": 28141, "relation_to_type": "type", "validated": true, "ani": 89.5402, "matched_fragments": 1169, "total_fragments": 1495, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter wuhouensis", "strain": "strain=WCHEW120002", "accession": "GCA_004331265.1", "taxid": 2529381, "species_taxid": 2529381, "relation_to_type": "type", "validated": true, "ani": 81.1241, "matched_fragments": 837, "total_fragments": 1495, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter rodentium", "strain": "strain=DSM 16636", "accession": "GCA_021278985.1", "taxid": 67825, "species_taxid": 67825, "relation_to_type": "type", "validated": true, "ani": 81.0508, "matched_fragments": 816, "total_fragments": 1495, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter hormaechei", "strain": "strain=FDAARGOS 1433", "accession": "GCA_019048245.1", "taxid": 158836, "species_taxid": 158836, "relation_to_type": "suspected-type", "validated": true, "ani": 81.0473, "matched_fragments": 826, "total_fragments": 1495, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudocitrobacter corydidari", "strain": "", "accession": "GCA_021172065.1", "taxid": 2891570, "species_taxid": 2891570, "relation_to_type": "type", "validated": true, "ani": 80.7709, "matched_fragments": 762, "total_fragments": 1495, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 97.92, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001277235.1", "gtdb_species": "s__Cronobacter dublinensis", "ani": 99.9997, "matched_fragments": 1493, "total_fragments": 1495, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cronobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.74", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 42, "status": "conclusive" }, { "accession": "GCF_001277195.1", "gtdb_species": "s__Cronobacter muytjensii", "ani": 92.2626, "matched_fragments": 1296, "total_fragments": 1495, "gtdb_taxonomy": 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